Objective To study the pulsed field gel electrophoresis(PFGE)type and antimicrobial resistance of Salmonella Typhimurium (S. Typhimurium) isolated from duck and swine, so as to provide support for source-tracking of S.Typhimurium strains in Sichuan Province. Methods A Total of 47 S. Typhimurium strains isolated from pigs and ducks were analyzed by PFGE and tested for antimicrobial resistance for 9 antibiotics by minimal inhibitory concentration (MIC) method. Results S. Typhimurium strains isolated from pigs and ducks differed in PFGE type and antimicrobial resistance. The strains isolated from ducks were clustered in cluster I and the pig source strains clustered in cluster II. The resistance rate of strains from pigs to the 6 kinds of antibiotics including ampicillin, ciprofloxacin, chloramphenicol, gentamycin, tetracycline and sulfamethoxazole compound trimethoprim were significantly higher than that of strains from ducks. S.Typhimurium with different PFGE types were different in the isolation areas and antimicrobial resistance. SCSTm-10 strains were located in MY region, and SCSTm-11 were mainly isolated in ZY region. The resistant rates of SCSTm-10 on sulfamethoxazole/trimethoprim and ciprofloxacin were higher than SCSTm-11. Conclusion PFGE typing could obtain the clustering information of isolated source, isolation location and antimicrobial resistance of S.Typhimurium in Sichuan Province, and provide support for the epidemiological investigation of S. Typhimurium infections.